Strain identifier
BacDive ID: 16130
Type strain: 
Species: Streptomyces xantholiticus
Strain history: KCC S-0282 <-- LIA 0017 (1130/12).
NCBI tax ID(s): 68285 (species)
version 9.1 (current version)
General
@ref: 9403
BacDive-ID: 16130
DSM-Number: 40244
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, antibiotic compound production
description: Streptomyces xantholiticus DSM 40244 is a spore-forming bacterium that produces antibiotic compounds and was isolated from Soil.
NCBI tax id
- NCBI tax id: 68285
- Matching level: species
strain history
| @ref | history |
|---|---|
| 9403 | <- E.B. Shirling, ISP <- Y.E. Konev, LIA, 1130/12 |
| 67770 | KCC S-0282 <-- LIA 0017 (1130/12). |
doi: 10.13145/bacdive16130.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Kitasatosporales
- family: Streptomycetaceae
- genus: Streptomyces
- species: Streptomyces xantholiticus
- full scientific name: Streptomyces xantholiticus (Konev and Tsyganov 1962) Pridham 1970 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Actinomyces xantholiticus
@ref: 9403
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces xantholiticus
full scientific name: Streptomyces xantholiticus (Konev and Tsyganov 1962) Pridham 1970
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 91.746
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 9403 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water |
| 9403 | STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 9403 | positive | growth | 28 |
| 67770 | positive | growth | 28 |
Physiology and metabolism
oxygen tolerance
- @ref: 69480
- oxygen tolerance: aerobe
- confidence: 91.863
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | yes | 92.116 |
| 69481 | yes | 100 |
compound production
| @ref | compound |
|---|---|
| 9403 | antibiotics 1130/12 (xanthalycin A, B) |
| 9403 | pentaene |
| 9403 | tetraene anti-fungals |
| 9403 | xanthalycine |
| 67770 | Polyene antibiotics |
observation
- @ref: 67770
- observation: quinones: MK-9(H8), MK-9(H6)
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Soil
- geographic location: near Kerch City
- country: Ukraine
- origin.country: UKR
- continent: Europe
Safety information
risk assessment
- @ref: 9403
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces xantholiticus gene for 16S rRNA, partial sequence | AB122750 | 564 | nuccore | 68285 |
| 20218 | Streptomyces xantholiticus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4863 | D44413 | 120 | nuccore | 68285 |
| 20218 | Streptomyces xantholiticus gene for 16S rRNA, partial sequence, strain: NBRC 13354 | AB184349 | 1455 | nuccore | 68285 |
| 124043 | Streptomyces xantholiticus strain NBRC 13354 16S ribosomal RNA gene, partial sequence. | OQ619102 | 1343 | nuccore | 68285 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces xantholiticus JCM 4863 | GCA_014651015 | scaffold | ncbi | 68285 |
| 66792 | Streptomyces xantholiticus strain JCM 4863 | 68285.3 | wgs | patric | 68285 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 91.746 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.494 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 91.863 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 92.116 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 96 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 87.5 | no |
External links
@ref: 9403
culture collection no.: DSM 40244, ATCC 27481, CBS 655.72, CGMCC AS 4.1379, IFO 13354, ISP 5244, JCM 4282, JCM 4863, NBRC 13354, RIA 1315, LIA 1130/12, BCRC 12646, CGMCC 4.1379, NCIMB 9857, NRRL B-12153, VKM Ac-1872, VTT E-011972
straininfo link
- @ref: 85195
- straininfo: 92647
literature
- topic: Phylogeny
- Pubmed-ID: 26608172
- title: Streptomyces formicae sp. nov., a novel actinomycete isolated from the head of Camponotus japonicus Mayr.
- authors: Bai L, Liu C, Guo L, Piao C, Li Z, Li J, Jia F, Wang X, Xiang W
- journal: Antonie Van Leeuwenhoek
- DOI: 10.1007/s10482-015-0628-7
- year: 2015
- mesh: Animals, Ants/*microbiology, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Head/microbiology, Molecular Sequence Data, Phylogeny, Streptomyces/classification/genetics/*isolation & purification
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 9403 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40244) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40244 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 85195 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID92647.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
| 124043 | Dr. Isabel Schober, Dr. Julia Koblitz | Data extracted from sequence databases, automatically matched based on designation and taxonomy |